木麻黄EST序列中SSR的分布特征及有效SSR标记的筛选

doi:10.7525/j.issn.1673-5102.2016.01.016

摘要/Abstract

摘要： 从NCBI的EST数据库中获得的木麻黄EST序列共有34 752条，进行拼接后得到全长7 278.578 kb的非冗余序列(Unigene)12 062条，并从中检索得到分布于353条Unigene的367个SSR位点，SSR检出率为2.93%，平均分布距离为19.83 kb，包括39种重复基序类型。其中，以二核苷酸和三核苷酸为主要类型，在总SSRs中所占比例分别为57.77%和34.60%；而二核苷酸重复基序中，AG/CT所占比例最高，为93.87%；在三核苷酸重复基序中AAG/CTT所占比例最高，为44.09%。对检索出的EST-SSR位点设计得到97对引物，其中32对为可有效扩增引物。Blastx分析发现77.3%的含SSR位点的EST序列与非冗余蛋白序列数据库中功能序列具有同源性，而功能已知的序列中葡萄来源的序列占有最大比例（10.4%）。GO功能分类发现，含有SSR位点的EST序列中有47.3%至少具有1个GO注释，归入细胞组分的序列最多，而其中细胞质和细胞核的功能项所占比例较大。

关键词: 木麻黄, EST, SSR

Abstract: There are 34 752 ESTs of Casuarinaceae in the database of NCBI, resulting in 12 062 non-redundant sequences(Unigene) with total length of 7 278.578 kb. 367 SSR were discovered to distribution on 353 Unigenes, the frequency and repeat motif types number of these EST-SSRs was 2.93% and 39, and the mean distance was 19.83 kb. Dinucleotide and trinucleotide repeats were the dominant types among the EST-SSRs, accounting for 57.77% and 34.06%, respectively. AG/CT(93.87%) and AAG/CTT(44.09%) were the most abundant motifs for dinucleotide and trinucleotide. There were 97 pairs of primers designed for the obtained EST-SSR, and 32 of all could be effectively amplified. By Blast analysis, 77.3% ESTs sequences containing SSR locus were homologous with functional sequences in non-redundant protein sequences databases. The homology with functions from Vitis vinifera had the greatest proportion(10.4%). By GO functional classification, 47.3% EST sequences containing SSR locus had at least one GO ontology, the sequences relevant to cellular components were most, and the functional items relevant to cytoplasm and nucleus were highest.

Key words: Casuarinaceae, EST, SSR

胡盼1；仲崇禄1；张勇1；姜清彬1；陈羽1；陈珍1；韩强1；Khongsak Pinyopusarerk2；Didier Bogusz3. 木麻黄EST序列中SSR的分布特征及有效SSR标记的筛选[J]. 植物研究, 2016, 36(1): 116-122.

HU Pan1；ZHONG Chong-Lu1；ZHANG Yong1；JIANG Qing-Bin1；CHEN Yu1；CHEN Zhen1；HAN Qiang1；Khongsak Pinyopusarerk2；Didier Bogusz3. Distribution and Molecular Marker of SSR in EST Resource of Casuarinaceae[J]. Bulletin of Botanical Research, 2016, 36(1): 116-122.

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